data_5C7A
#
_model_server_result.job_id            -jrkK4soBAu5gY0rxjvy9A 
_model_server_result.datetime_utc      '2025-02-05 06:53:42' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          5c7a 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    5C7A 
#
_exptl.entry_id    5C7A 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              260.355 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2R)-4-[2-(2,3-dihydro-1H-indol-1-yl)-2-oxoethyl]-2-methylpiperazin-1-ium 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            5C7A 
_cell.length_a            71.401 
_cell.length_b            71.401 
_cell.length_c            105.242 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5C7A 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        91 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 A SG CYS 107 A CYS 351 1_555 A SG CYS 107 A CYS 351 5_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc1 A SG CYS 56 A CYS 300 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
metalc ? metalc2 A SG CYS 59 A CYS 303 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc3 A NE2 HIS 76 A HIS 320 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc4 A SG CYS 83 A CYS 327 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
#
_chem_comp.formula           'C15 H22 N3 O 1' 
_chem_comp.formula_weight    260.355 
_chem_comp.id                4YE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2R)-4-[2-(2,3-dihydro-1H-indol-1-yl)-2-oxoethyl]-2-methylpiperazin-1-ium 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C12 C13 4YE doub 1 n y 
C12 C11 4YE sing 2 n y 
C13 C14 4YE sing 3 n y 
C11 C10 4YE sing 4 n n 
C11 C16 4YE doub 5 n y 
C10 C9 4YE sing 6 n n 
C14 C15 4YE doub 7 n y 
C16 C15 4YE sing 8 n y 
C16 N8 4YE sing 9 n n 
C9 N8 4YE sing 10 n n 
N8 C6 4YE sing 11 n n 
C6 O7 4YE doub 12 n n 
C6 C5 4YE sing 13 n n 
C5 N4 4YE sing 14 n n 
N4 C3 4YE sing 15 n n 
N4 C17 4YE sing 16 n n 
C3 C2 4YE sing 17 n n 
C17 C18 4YE sing 18 n n 
C2 C1 4YE sing 19 n n 
C2 N19 4YE sing 20 n n 
C18 N19 4YE sing 21 n n 
C1 H20 4YE sing 22 n n 
C1 H22 4YE sing 23 n n 
C1 H21 4YE sing 24 n n 
C2 H23 4YE sing 25 n n 
C3 H24 4YE sing 26 n n 
C3 H25 4YE sing 27 n n 
C5 H27 4YE sing 28 n n 
C5 H26 4YE sing 29 n n 
C10 H30 4YE sing 30 n n 
C10 H31 4YE sing 31 n n 
C12 H32 4YE sing 32 n n 
C13 H33 4YE sing 33 n n 
C14 H34 4YE sing 34 n n 
C15 H35 4YE sing 35 n n 
C9 H28 4YE sing 36 n n 
C9 H29 4YE sing 37 n n 
C17 H37 4YE sing 38 n n 
C17 H36 4YE sing 39 n n 
C18 H38 4YE sing 40 n n 
C18 H39 4YE sing 41 n n 
N19 H41 4YE sing 42 n n 
N19 H40 4YE sing 43 n n 
#
_atom_sites.entry_id                     5C7A 
_atom_sites.fract_transf_matrix[1][1]    0.014005 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014005 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.009502 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
B 2 ZN A 1 401 1 ZN ZN . 
C 3 4YE A 1 402 1 4YE L01 . 
D 4 HOH A 1 501 81 HOH HOH . 
D 4 HOH A 2 502 1 HOH HOH . 
D 4 HOH A 3 503 44 HOH HOH . 
D 4 HOH A 4 504 50 HOH HOH . 
D 4 HOH A 5 505 109 HOH HOH . 
D 4 HOH A 6 506 131 HOH HOH . 
D 4 HOH A 7 507 24 HOH HOH . 
D 4 HOH A 8 508 48 HOH HOH . 
D 4 HOH A 9 509 41 HOH HOH . 
D 4 HOH A 10 510 33 HOH HOH . 
D 4 HOH A 11 511 40 HOH HOH . 
D 4 HOH A 12 512 27 HOH HOH . 
D 4 HOH A 13 513 75 HOH HOH . 
D 4 HOH A 14 514 51 HOH HOH . 
D 4 HOH A 15 515 31 HOH HOH . 
D 4 HOH A 16 516 22 HOH HOH . 
D 4 HOH A 17 517 21 HOH HOH . 
D 4 HOH A 18 518 102 HOH HOH . 
D 4 HOH A 19 519 127 HOH HOH . 
D 4 HOH A 20 520 80 HOH HOH . 
D 4 HOH A 21 521 25 HOH HOH . 
D 4 HOH A 22 522 128 HOH HOH . 
D 4 HOH A 23 523 36 HOH HOH . 
D 4 HOH A 24 524 126 HOH HOH . 
D 4 HOH A 25 525 85 HOH HOH . 
D 4 HOH A 26 526 18 HOH HOH . 
D 4 HOH A 27 527 26 HOH HOH . 
D 4 HOH A 28 528 70 HOH HOH . 
D 4 HOH A 29 529 68 HOH HOH . 
D 4 HOH A 30 530 55 HOH HOH . 
D 4 HOH A 31 531 14 HOH HOH . 
D 4 HOH A 32 532 62 HOH HOH . 
D 4 HOH A 33 533 83 HOH HOH . 
D 4 HOH A 34 534 66 HOH HOH . 
D 4 HOH A 35 535 19 HOH HOH . 
D 4 HOH A 36 536 71 HOH HOH . 
D 4 HOH A 37 537 8 HOH HOH . 
D 4 HOH A 38 538 125 HOH HOH . 
D 4 HOH A 39 539 28 HOH HOH . 
D 4 HOH A 40 540 13 HOH HOH . 
D 4 HOH A 41 541 120 HOH HOH . 
D 4 HOH A 42 542 77 HOH HOH . 
D 4 HOH A 43 543 38 HOH HOH . 
D 4 HOH A 44 544 72 HOH HOH . 
D 4 HOH A 45 545 104 HOH HOH . 
D 4 HOH A 46 546 67 HOH HOH . 
D 4 HOH A 47 547 11 HOH HOH . 
D 4 HOH A 48 548 93 HOH HOH . 
D 4 HOH A 49 549 100 HOH HOH . 
D 4 HOH A 50 550 42 HOH HOH . 
D 4 HOH A 51 551 57 HOH HOH . 
D 4 HOH A 52 552 113 HOH HOH . 
D 4 HOH A 53 553 105 HOH HOH . 
D 4 HOH A 54 554 107 HOH HOH . 
D 4 HOH A 55 555 16 HOH HOH . 
D 4 HOH A 56 556 53 HOH HOH . 
D 4 HOH A 57 557 5 HOH HOH . 
D 4 HOH A 58 558 110 HOH HOH . 
D 4 HOH A 59 559 88 HOH HOH . 
D 4 HOH A 60 560 99 HOH HOH . 
D 4 HOH A 61 561 119 HOH HOH . 
D 4 HOH A 62 562 4 HOH HOH . 
D 4 HOH A 63 563 3 HOH HOH . 
D 4 HOH A 64 564 111 HOH HOH . 
D 4 HOH A 65 565 58 HOH HOH . 
D 4 HOH A 66 566 32 HOH HOH . 
D 4 HOH A 67 567 47 HOH HOH . 
D 4 HOH A 68 568 64 HOH HOH . 
D 4 HOH A 69 569 82 HOH HOH . 
D 4 HOH A 70 570 17 HOH HOH . 
D 4 HOH A 71 571 7 HOH HOH . 
D 4 HOH A 72 572 10 HOH HOH . 
D 4 HOH A 73 573 103 HOH HOH . 
D 4 HOH A 74 574 96 HOH HOH . 
D 4 HOH A 75 575 97 HOH HOH . 
D 4 HOH A 76 576 61 HOH HOH . 
D 4 HOH A 77 577 49 HOH HOH . 
D 4 HOH A 78 578 52 HOH HOH . 
D 4 HOH A 79 579 74 HOH HOH . 
D 4 HOH A 80 580 122 HOH HOH . 
D 4 HOH A 81 581 92 HOH HOH . 
D 4 HOH A 82 582 101 HOH HOH . 
D 4 HOH A 83 583 60 HOH HOH . 
D 4 HOH A 84 584 108 HOH HOH . 
D 4 HOH A 85 585 91 HOH HOH . 
D 4 HOH A 86 586 123 HOH HOH . 
D 4 HOH A 87 587 39 HOH HOH . 
D 4 HOH A 88 588 15 HOH HOH . 
D 4 HOH A 89 589 73 HOH HOH . 
D 4 HOH A 90 590 98 HOH HOH . 
D 4 HOH A 91 591 115 HOH HOH . 
D 4 HOH A 92 592 121 HOH HOH . 
D 4 HOH A 93 593 69 HOH HOH . 
D 4 HOH A 94 594 30 HOH HOH . 
D 4 HOH A 95 595 29 HOH HOH . 
D 4 HOH A 96 596 20 HOH HOH . 
D 4 HOH A 97 597 114 HOH HOH . 
D 4 HOH A 98 598 86 HOH HOH . 
D 4 HOH A 99 599 89 HOH HOH . 
D 4 HOH A 100 600 45 HOH HOH . 
D 4 HOH A 101 601 112 HOH HOH . 
D 4 HOH A 102 602 129 HOH HOH . 
D 4 HOH A 103 603 34 HOH HOH . 
D 4 HOH A 104 604 56 HOH HOH . 
D 4 HOH A 105 605 130 HOH HOH . 
D 4 HOH A 106 606 124 HOH HOH . 
D 4 HOH A 107 607 84 HOH HOH . 
D 4 HOH A 108 608 35 HOH HOH . 
D 4 HOH A 109 609 118 HOH HOH . 
D 4 HOH A 110 610 23 HOH HOH . 
D 4 HOH A 111 611 65 HOH HOH . 
D 4 HOH A 112 612 37 HOH HOH . 
D 4 HOH A 113 613 78 HOH HOH . 
D 4 HOH A 114 614 106 HOH HOH . 
D 4 HOH A 115 615 79 HOH HOH . 
D 4 HOH A 116 616 90 HOH HOH . 
D 4 HOH A 117 617 46 HOH HOH . 
D 4 HOH A 118 618 95 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 4YE . . . C 3 -15.376 -21.443 -0.347 0.91 26.6 ? C1 4YE 402 A 1 
HETATM 2 C C2 4YE . . . C 3 -15.911 -20.102 -0.836 0.91 27.22 ? C2 4YE 402 A 1 
HETATM 3 C C3 4YE . . . C 3 -15.898 -19.989 -2.36 0.91 28.15 ? C3 4YE 402 A 1 
HETATM 4 N N4 4YE . . . C 3 -16.333 -18.664 -2.821 0.91 28.07 ? N4 4YE 402 A 1 
HETATM 5 C C5 4YE . . . C 3 -16.498 -18.577 -4.28 0.91 27.93 ? C5 4YE 402 A 1 
HETATM 6 C C6 4YE . . . C 3 -15.26 -18.867 -5.113 0.91 28.04 ? C6 4YE 402 A 1 
HETATM 7 C C10 4YE . . . C 3 -16.479 -19.063 -8.609 0.91 28.44 ? C10 4YE 402 A 1 
HETATM 8 C C11 4YE . . . C 3 -15.002 -19.333 -8.689 0.91 28.98 ? C11 4YE 402 A 1 
HETATM 9 C C12 4YE . . . C 3 -14.214 -19.623 -9.791 0.91 28.91 ? C12 4YE 402 A 1 
HETATM 10 C C13 4YE . . . C 3 -12.853 -19.84 -9.633 0.91 30.03 ? C13 4YE 402 A 1 
HETATM 11 C C14 4YE . . . C 3 -12.279 -19.767 -8.379 0.91 30.33 ? C14 4YE 402 A 1 
HETATM 12 C C15 4YE . . . C 3 -13.059 -19.477 -7.272 0.91 29.07 ? C15 4YE 402 A 1 
HETATM 13 C C16 4YE . . . C 3 -14.417 -19.261 -7.432 0.91 29.16 ? C16 4YE 402 A 1 
HETATM 14 O O7 4YE . . . C 3 -14.168 -19.016 -4.581 0.91 30.06 ? O7 4YE 402 A 1 
HETATM 15 N N8 4YE . . . C 3 -15.417 -18.954 -6.477 0.91 29.99 ? N8 4YE 402 A 1 
HETATM 16 C C9 4YE . . . C 3 -16.717 -18.7 -7.154 0.91 29.55 ? C9 4YE 402 A 1 
HETATM 17 C C17 4YE . . . C 3 -15.48 -17.607 -2.263 0.91 30.49 ? C17 4YE 402 A 1 
HETATM 18 C C18 4YE . . . C 3 -15.505 -17.65 -0.745 0.91 28.41 ? C18 4YE 402 A 1 
HETATM 19 N N19 4YE . . . C 3 -15.078 -18.991 -0.265 0.91 28.42 1 N19 4YE 402 A 1 
HETATM 20 H H20 4YE . . . C 3 -15.493 -22.115 -1.047 0.91 26.74 ? H20 4YE 402 A 1 
HETATM 21 H H22 4YE . . . C 3 -14.426 -21.357 -0.134 0.91 26.78 ? H22 4YE 402 A 1 
HETATM 22 H H21 4YE . . . C 3 -15.865 -21.716 0.452 0.91 26.25 ? H21 4YE 402 A 1 
HETATM 23 H H23 4YE . . . C 3 -16.829 -19.979 -0.508 0.91 27.15 ? H23 4YE 402 A 1 
HETATM 24 H H24 4YE . . . C 3 -16.491 -20.669 -2.737 0.91 27.92 ? H24 4YE 402 A 1 
HETATM 25 H H25 4YE . . . C 3 -14.999 -20.164 -2.683 0.91 27.85 ? H25 4YE 402 A 1 
HETATM 26 H H27 4YE . . . C 3 -17.197 -19.205 -4.545 0.91 26.93 ? H27 4YE 402 A 1 
HETATM 27 H H26 4YE . . . C 3 -16.814 -17.675 -4.502 0.91 27.95 ? H26 4YE 402 A 1 
HETATM 28 H H30 4YE . . . C 3 -16.731 -18.323 -9.2 0.91 28.8 ? H30 4YE 402 A 1 
HETATM 29 H H31 4YE . . . C 3 -16.993 -19.858 -8.861 0.91 28.8 ? H31 4YE 402 A 1 
HETATM 30 H H32 4YE . . . C 3 -14.603 -19.674 -10.648 0.91 29.22 ? H32 4YE 402 A 1 
HETATM 31 H H33 4YE . . . C 3 -12.319 -20.038 -10.384 0.91 29.76 ? H33 4YE 402 A 1 
HETATM 32 H H34 4YE . . . C 3 -11.353 -19.915 -8.276 0.91 29.88 ? H34 4YE 402 A 1 
HETATM 33 H H35 4YE . . . C 3 -12.669 -19.428 -6.419 0.91 29.45 ? H35 4YE 402 A 1 
HETATM 34 H H28 4YE . . . C 3 -16.977 -17.759 -7.067 0.91 29.15 ? H28 4YE 402 A 1 
HETATM 35 H H29 4YE . . . C 3 -17.416 -19.255 -6.773 0.91 27.98 ? H29 4YE 402 A 1 
HETATM 36 H H37 4YE . . . C 3 -14.565 -17.726 -2.576 0.91 29.57 ? H37 4YE 402 A 1 
HETATM 37 H H36 4YE . . . C 3 -15.798 -16.735 -2.57 0.91 30.19 ? H36 4YE 402 A 1 
HETATM 38 H H38 4YE . . . C 3 -16.41 -17.463 -0.424 0.91 28.98 ? H38 4YE 402 A 1 
HETATM 39 H H39 4YE . . . C 3 -14.905 -16.97 -0.385 0.91 29.52 ? H39 4YE 402 A 1 
HETATM 40 H H41 4YE . . . C 3 -14.203 -19.121 -0.51 0.91 27.73 ? H41 4YE 402 A 1 
HETATM 41 H H40 4YE . . . C 3 -15.126 -19.013 0.644 0.91 27.82 ? H40 4YE 402 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    1 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           41 
#